Variant report

Variant	rs73779094
Chromosome Location	chr6:149534408-149534409
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:21)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:21 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	STAT5A	chr6:149534058-149534841	GM12878	blood:	n/a	n/a
2	MTA3	chr6:149533908-149535020	GM12878	blood:	n/a	n/a
3	WRNIP1	chr6:149534192-149534878	GM12878	blood:	n/a	n/a
4	RUNX3	chr6:149533955-149534970	GM12878	blood:	n/a	n/a
5	PML	chr6:149533891-149535019	GM12878	blood:	n/a	n/a
6	NFIC	chr6:149533793-149535024	GM12878	blood:	n/a	n/a
7	SPI1	chr6:149533916-149534438	HL-60	blood:	n/a	n/a
8	FOXM1	chr6:149533890-149534973	GM12878	blood:	n/a	n/a
9	POLR2A	chr6:149533919-149535041	GM12892	blood:	n/a	n/a
10	ELK1	chr6:149534056-149534474	GM12878	blood:	n/a	n/a
11	BCLAF1	chr6:149533794-149534425	GM12878	blood:	n/a	n/a
12	IKZF1	chr6:149533874-149534534	GM12878	blood:	n/a	n/a
13	EP300	chr6:149534034-149534936	GM12878	blood:	n/a	n/a
14	SPI1	chr6:149534030-149534410	GM12878	blood:	n/a	n/a
15	RELA	chr6:149534045-149534882	GM19099	blood:	n/a	n/a
16	BCLAF1	chr6:149533998-149534528	GM12878	blood:	n/a	n/a
17	ATF2	chr6:149533932-149534771	GM12878	blood:	n/a	n/a
18	MTA3	chr6:149533917-149535067	GM12878	blood:	n/a	n/a
19	POLR2A	chr6:149533902-149534461	GM12892	blood:	n/a	n/a
20	RUNX3	chr6:149533795-149535358	GM12878	blood:	n/a	n/a
21	POLR2A	chr6:149533990-149534870	GM12878	blood:	n/a	n/a

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:149532328..149534775-chr6:149538488..149542514,4	K562	blood:
2	chr6:149532501..149535186-chr6:149537536..149540532,2	MCF-7	breast:
3	chr6:149529664..149531890-chr6:149533306..149535145,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000228408	TF binding region
ENSG00000055208	Chromatin interaction
ENSG00000228408	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11963241	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11966485	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11968255	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3934769	1.00[AMR][1000 genomes]
rs55783108	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56014076	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56361228	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56961470	1.00[AMR][1000 genomes]
rs57019685	1.00[AMR][1000 genomes]
rs57383534	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58349060	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58714623	1.00[AMR][1000 genomes]
rs59335772	1.00[AMR][1000 genomes]
rs59877640	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73779021	1.00[AMR][1000 genomes]
rs73779079	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73779080	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73779081	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73779082	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73779083	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73779084	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73779085	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73779088	1.00[AMR][1000 genomes]
rs73779092	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73779095	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73779097	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73779100	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73781710	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9918359	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032319	chr6:149271433-149550525	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv538470	chr6:149271433-149550525	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv1024776	chr6:149398652-149654593	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149530600-149534600	Enhancers	Colon Smooth Muscle	Colon
2	chr6:149530600-149534800	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr6:149530600-149534800	Enhancers	Primary T cells fromperipheralblood	blood
4	chr6:149530600-149535400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
5	chr6:149530600-149535400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr6:149530600-149535600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr6:149530600-149535600	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr6:149530800-149534600	Enhancers	Rectal Smooth Muscle	rectum
9	chr6:149530800-149534800	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr6:149530800-149534800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr6:149530800-149535000	Enhancers	Brain Anterior Caudate	brain
12	chr6:149530800-149535400	Enhancers	Fetal Heart	heart
13	chr6:149530800-149535400	Enhancers	Fetal Lung	lung
14	chr6:149530800-149535600	Enhancers	Primary hematopoietic stem cells	blood
15	chr6:149530800-149535600	Enhancers	Primary T helper cells PMA-I stimulated	--
16	chr6:149530800-149535600	Enhancers	Primary T helper cells fromperipheralblood	blood
17	chr6:149530800-149535600	Enhancers	Fetal Stomach	stomach
18	chr6:149530800-149536000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:149531000-149534600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
20	chr6:149531000-149534600	Enhancers	NH-A	brain
21	chr6:149531000-149534800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr6:149531000-149535000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr6:149531000-149535000	Enhancers	Brain Substantia Nigra	brain
24	chr6:149531000-149535200	Enhancers	Osteobl	bone
25	chr6:149531000-149535400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr6:149532600-149534800	Enhancers	Primary neutrophils fromperipheralblood	blood
27	chr6:149532600-149535000	Weak transcription	HSMM	muscle
28	chr6:149533000-149534600	Enhancers	Brain Cingulate Gyrus	brain
29	chr6:149533200-149534800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
30	chr6:149533200-149535000	Enhancers	Duodenum Smooth Muscle	Duodenum
31	chr6:149533200-149535000	Flanking Active TSS	GM12878-XiMat	blood
32	chr6:149533200-149549400	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr6:149533400-149535000	Enhancers	Primary B cells from peripheral blood	blood
34	chr6:149533400-149535200	Enhancers	Primary T killer memory cells from peripheral blood	blood
35	chr6:149533600-149534600	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
36	chr6:149533600-149534800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr6:149533600-149534800	Enhancers	Fetal Thymus	thymus
38	chr6:149533600-149535600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
39	chr6:149533800-149534800	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr6:149533800-149534800	Weak transcription	Placenta	Placenta
41	chr6:149533800-149535800	Enhancers	Primary T helper naive cells from peripheral blood	blood
42	chr6:149534000-149534600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr6:149534000-149534600	Enhancers	HMEC	breast
44	chr6:149534000-149537000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr6:149534200-149534600	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
46	chr6:149534200-149534600	Enhancers	Duodenum Mucosa	Duodenum
47	chr6:149534200-149534600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
48	chr6:149534200-149535000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr6:149534200-149535400	Enhancers	Muscle Satellite Cultured Cells	--
50	chr6:149534200-149547600	Weak transcription	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links